Fig. 1. Active transcription is required for the recovery of TS and NTS from CPD-lesions.

a Schematic showing sample preparation and construction of CPD-seq libraries. b The frequency of reads that were adjacent to a potential CPD lesion site (TT, TC, CT, and CC) or a Non-CPD site for each recovery timepoint. Data is shown for a low (60 J/m²) and high (240 J/m²) doses of UV. c The recovery of lesions after 20 min in WT, Rif-treated WT, ΔuvrA and ΔuvrD cells (****p < 10⁻³⁰⁸). Boxplots show the distribution of the percent decrease in TT-CPDs for each strand in gene bodies that had at least 1.5-fold TT-CPD enrichment at the 0-timepoint over NT-timepoint (see methods, Supplementary Fig. 1). d The recovery of lesions after 20 min in WT and lexA3 mutant cells. Genes were split by transcription level: high = orange, mid = yellow, and low = blue (for details on how genes were split, see Methods). The box shows the interquartile range (IQR), the line shows the median, and the whiskers extend to 1.5xIQR. The top of the box represents the 75th percentile and bottom represents the 25th percentile. n denotes the number of genes in each plot. P-values were calculated using a paired Wilcoxon signed rank test.